Activation of retrotransposable elements in cellular senescence and aging

细胞衰老和老化中逆转录转座元件的激活

• 批准号: 8905535
• 负责人: Steven Wood Criscione
• 金额: $ 4.31万
• 依托单位: BROWN UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-04-01 至 2017-05-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8905535
• 关键词: Address; Affect; Age; Aging; Aging-Related Process; Algorithms; Beryllium; Bioinformatics; Biological; Biological Assay; Biological Process; Brain; Cardiovascular Diseases; Cause of Death; Cell Aging; Cell Nucleus; Cell physiology; Cells; Cellular Structures; Chromatin; Code; Computing Methodologies; DNA; DNA Insertion Elements; DNA Sequence; DNA Transposable Elements; DNA copy number; Diabetes Mellitus; Disease; Drosophila genus; Elements; Enhancers; Epigenetic Process; Etiology; Event; Exons; Frequencies; Future; Gene Expression Regulation; Gene Mutation; Genome; Genomics; Goals; Heterogeneity; High-Throughput DNA Sequencing; High-Throughput Nucleotide Sequencing; Human; Human Genome; Indium; Individual; Intervention; Introns; Location; Long Terminal Repeats; Malignant Neoplasms; Methods; Mitotic; Modeling; Molecular; Muscle; Mutagenesis; Neurons; Normal Cell; Nuclear; Organism; Output; Parasites; Paste substance; Pattern; Pharmaceutical Preparations; Positioning Attribute; Process; Proliferating; Proteins; RNA; RNA Splicing; Reactive Oxygen Species; Relative (related person); Reporting; Research; Retrotransposition; Ribonucleic Acid Regulatory Sequences; Short Interspersed Nucleotide Elements; Somatic Cell; Stimulus; Stress; Structure; Subgroup; Telomere Shortening; Testing; Therapeutic; Time; Tissues; Untranslated RNA; Work; age related; aged; cancer cell; derepression; experience; fly; genome integrity; genome sequencing; genome-wide; in vivo; innovation; interest; macula; neuronal cell body; novel; promoter; public health relevance; research study; response; senescence; single cell sequencing; tool; transposon/insertion element; tumor; wound

 DESCRIPTION (provided by applicant): Retrotransposable elements (RTEs) comprise approximately 45% of the human genome. RTEs are mobile DNA elements that can insert into new genomic positions using a copy and paste mechanism. This process, termed retrotransposition, can be deleterious at multiple levels by causing mutagenesis and genome structural instability, triggering epigenetic changes, and disrupting normal patterns of gene regulation. Numerous single- gene mutations in humans have been documented to result from germline retrotransposition. Organisms have evolved multiple transcriptional and post-transcriptional silencing mechanisms to protect their genomes against RTEs. Until recently RTEs were thought to be silent in the soma, however, new evidence points to activity in the brain and in cancer cells. Indeed, initial indications are that somatic retrotransposition is much more frequent than previously anticipated. We have reported that retrotransposition is activated during aging and cellular senescence, and hypothesized that it may represent a hitherto unappreciated molecular aging process. The long-term goal of our research is to determine the impact of retrotransposition on genome integrity during aging. As a first step, my objective in thi proposal is to study, using high throughput DNA sequencing methods, the mobilization of RTEs during cellular senescence. In Aim 1 I will perform genome-wide profiling to determine where new insertions occur and evaluate whether these events have the potential to exert deleterious effects by disrupting regions of the genome important for cell function. In Aim 2 I will examine the occurrence of unique retrotranspositions in individual cells. We have evidence that many new insertions likely occur in individual post-mitotic cells after they have ceased dividing. To comprehensively profile the spectrum and frequency of these events I will use single-cell whole genome DNA sequencing. My research will employ innovative state-of-the-art high-throughput sequencing strategies, and I will develop new bioinformatic tools to integrate and validate the output from multiple algorithms. The information obtained will address the question: To what extent is retrotransposition damaging to the genomes of somatic cells in our bodies, and is this a plausible mechanism of aging? The experience gained and tools developed will be highly informative for future studies aimed at examining these processed directly in aging tissues. My efforts will also inform whether proof- of-principle studies using interventions that inhibit retrotransposition should be investigated as potential therapeutics for age-associated diseases.

 描述（由申请人提供）：逆转录转座因子（RTE）约占人类基因组的45%。RTE是移动的DNA元件，其可以使用复制和粘贴机制插入到新的基因组位置中。这个过程，称为反转录转座，可能是有害的，在多个层面上引起诱变和基因组结构的不稳定性，引发表观遗传变化，并破坏基因调控的正常模式。许多人类单基因突变已被证明是由生殖系逆转录转座引起的。生物体已经进化出多种转录和转录后沉默机制来保护其基因组免受RTEs的侵害。直到最近，RTEs还被认为在索马中是沉默的，然而，新的证据表明它在大脑和癌细胞中是活跃的。事实上，最初的迹象是，体细胞逆转录比以前预期的要频繁得多。我们已经报道了反转录转座在衰老和细胞衰老过程中被激活，并假设它可能代表了一个迄今为止未被认识到的分子衰老过程。我们研究的长期目标是确定逆转录转座对衰老过程中基因组完整性的影响。作为第一步，我的目标是在这个建议是研究，使用高通量DNA测序方法，在细胞衰老过程中的动员RTEs。在目标1中，我将进行全基因组分析，以确定新的插入发生的位置，并评估这些事件是否有可能通过破坏对细胞功能重要的基因组区域来产生有害影响。在目标2中，我将研究单个细胞中独特的逆转录转座的发生。我们有证据表明，许多新的插入可能发生在个别有丝分裂后细胞停止分裂。为了全面分析这些事件的频谱和频率，我将使用单细胞全基因组DNA测序。我的研究将采用创新的最先进的高通量测序策略，我将开发新的生物信息学工具来整合和验证多种算法的输出。获得的信息将解决这个问题：逆转录转座在多大程度上损害了我们体内体细胞的基因组，这是一种可信的衰老机制吗？所获得的经验和开发的工具将为未来的研究提供高度信息，旨在检查这些直接在老化组织中处理。我的努力也将告知是否应该调查使用抑制反转录转座的干预措施作为年龄相关疾病的潜在治疗方法的原理验证研究。